Main Page: Difference between revisions

Latest revision as of 21:07, 24 February 2026

While still under development, these are some of the exciting entries on models and measurements recently added by community members:
Respiration from oxygen consumption: optodes
Single Turnover Chlorophyll Fluorescence
NifH amplicon sequence
Net community production (NCP) - O₂/Ar
PISCES
Darwin
CMIP
Proteome Allocation Models

Origin Story & Mission

Marine biogeochemistry needs a shared vocabulary between experimentalists and modelers for cross-disciplinary work to advance the field. Yet, to integrate disciplines successfully, researchers need to be vocal about discrepancy and uncertainty, and realize caveats of how values are determined. This community-driven collection of biogeochemical output began at the BioGeoScapes modelling workshop and the following PRiMO session at Woods Hole Oceanographic Institution in September 2025. To highlight cross-discipline implications like What data was particularly helpful to inform a model? or How can a model help constrain experimental parameters?, the idea arose to create a Wiki that provided a central repository for basic information related to interdisciplinary biogeochemistry science. This emerged as a way to address needs that have arisen in conversations specifically:

defining key terms used across disciplines
explain types of data generated by different methods, assumptions, and potential biases
describe different types of models, required data inputs, computational demand, and limitations

Content

OceanWiki is an encyclopedia of marine biogeochemistry, and consists of three components:

Lexicon

A dictionary with definitions from both experimentalists, observationalists, and modelers.

Data Types

Types of data from experimental observations and how they are obtained, grouped by the process they investigate.

Teaching material

This was a suggestion from the BioGeoScapes leadership. If you are interested in leading the effort, please get in contact with one of us (see the bottom of How to contribute).

@@ Line 1: / Line 1: @@
-{{DISPLAYTITLE:Welcome to the Oceancyclopedia}}
+{{DISPLAYTITLE:Welcome to OceanWiki}}
-=== Origin story - where it started ===
+'''While still under development, these are some of the exciting entries on models and measurements recently added by community members:'''<br>
-This community-driven collection of biogeochemical output began at the [https://biogeoscapes.org/ BioGeoScapes] modelling workshop and the following [https://www.primoscorwg.org PRiMO] session at Woods Hole Oceanographic Institution in September 2025. It builds on their knowledge and experience to advance the field.
+[[Respiration from oxygen consumption: optodes]]<br>
+[[Single Turnover Chlorophyll Fluorescence]]<br>
+[[NifH amplicon sequence]]<br>
+[[Net community production (NCP) - O₂/Ar]]<br>
+[[PISCES]]<br>
+[[Darwin]]<br>
+[[CMIP]]<br>
+[[Proteome Allocation Models]]
-=== Mission ===
+== Origin Story & Mission ==
-Marine biogeochemistry needs a shared vocabulary between experimentalists and modelers for cross-disciplinary work to advance the field. Written output can highlight cross-discipline implications:<br>
+Marine biogeochemistry needs a shared vocabulary between experimentalists and modelers for cross-disciplinary work to advance the field. Yet, to integrate disciplines successfully, researchers need to be vocal about discrepancy and uncertainty, and realize caveats of how values are determined. This community-driven collection of biogeochemical output began at the [https://biogeoscapes.org/ BioGeoScapes] modelling workshop and the following [https://www.primoscorwg.org PRiMO] session at Woods Hole Oceanographic Institution in September 2025. To highlight cross-discipline implications like ''What data was particularly helpful to inform a model?'' or ''How can a model help constrain experimental parameters?'', the idea arose to create a Wiki that provided a central repository for basic information related to interdisciplinary biogeochemistry science. This emerged as a way to address needs that have arisen in conversations specifically:
-*What data was particularly helpful to inform a model?<br>
+*defining key terms used across disciplines
-*How can an experimentalist capitalize on a model to constrain parameter spaces?<br>
+*explain types of data generated by different methods, assumptions, and potential biases
-Yet, to integrate disciplines successfully, researchers need to be vocal about discrepancy and uncertainty, and realize caveats of how values are determined (via any of the three categories of work).
+*describe different types of models, required data inputs, computational demand, and limitations
-=== Content ===
+== Content ==
-The '''Oceancyclopedia''' is an encyclopedia to '''bridge disciplines of marine biogeochemistry''', and consists of three components:
+'''OceanWiki''' is an encyclopedia of '''marine biogeochemistry''', and consists of three components:
-==== [[:Category:Lexicon|Lexicon]] ====
-A dictionary with definitions from both experimentalists, observationalists, and modelers.<br>
-(Include math, figures, etc. as needed)
-==== [[Data Types|Data wiki]] ====
-Types of data from experimental observations explained including how they are obtained. Methods are grouped by the process they investigate.
-*[[Photoautotrophy]]
-*[[Nitrogen fixation]]
-==== [[Model Types|Model wiki]] ====
-Types of models explained grouped by the scales they function at.<br>
-*[[Cellular scale]]
-*[[Biome scale]]
-*[[Global scale]]<br>
-These pages contain definitions, limitations, context, and references.<br>
+=== [[:Category:Lexicon|Lexicon]] ===
-They are populated by researchers, naming responsible authors for context and credit.
+A dictionary with definitions from both experimentalists, observationalists, and modelers.
-==== Teaching material ====
+=== [[Data Types]] ===
+Types of data from experimental observations and how they are obtained, grouped by the process they investigate.
+==== Primary Production ====
+[[Photoautotrophy]] | [[Nitrogen Fixation]] | [[Phytoplankton C/N-Based Growth Rates]] | [[Chemoautotrophy]]
+==== Secondary Production ====
+[[Enzyme Activity]] | [[Growth Rate]] | [[Respiration]]
+==== Nutrient Fluxes ====
+[[Nitrogen]] | [[Phosphorous]] | [[Sulfur]] | [[Trace Metals]] | [[Biomineralization]]
+==== Interactions ====
+[[Grazing]] | [[Mixotrophy]] | [[Viruses]] | [[Allelopathy]] | [[Life cycles]]
-This was a suggestion from the BioGeoScapes leadership and we are working on incorporating it.
+=== [[Model Types]] ===
+Types of models explained grouped by the scales they function at.
+==== [[Cellular scale]] ====
+[[Flux Balance Analysis]] | [[Proteome Allocation Models]] | [[Particle Simulation]] | [[Bio Particle Simulation]]
+==== [[Biome scale]] ====
+[[Community Flux Balance Analysis]] | [[GENOME]]
+==== [[Global scale]] ====
+[[CMIP]] | [[MARBL]] | [[Darwin]] | [[AWESOME-OCIM]] | [[PISCES]]
+=== Teaching material ===
+This was a suggestion from the BioGeoScapes leadership. If you are interested in leading the effort, please get in contact with one of us (see the bottom of [[How to contribute]]).